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Software . 2018
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Software . 2018
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ozagordi/MinVar: Predict resistance to HIV drugs, include ambiguous consensus

Authors: Osvaldo Zagordi;

ozagordi/MinVar: Predict resistance to HIV drugs, include ambiguous consensus

Abstract

This release of MinVar includes several changes and a couple of important updates. The most important is that, when running on HIV, sierrapy is used to interrogate HIVdb and obtain prediction of resistance to drugs. The report also includes ambiguity scores (fraction of ambiguous nucleotides), a measure useful to estimate the time of infection. Further, a consensus sequence with wobble bases is now part of the output. Added Report now includes ambiguity score derived from ambiguous consensus sequence. Consensus sequence with ambiguous bases is saved into cns_ambiguous.fasta. Cells of drug resistance report are colour coded. The report includes levels of drug resistance inferred by HIVdb. Changed Recombinant sequences are checked for also with HIV data. Threshold for sierra is read from the INI file ~/.minvar/runpars.ini Minor changes in final report. masterComments files with DRMs lists are updated to version 8.4 Both full drug name and abbreviation are written. Subtype inference only reports top hit, subtype names are now clearer.

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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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